Locus 1499

Sequence ID 2R_DroMel_CAF1
Location 5,682,405 – 5,682,521
Length 116
Max. P 0.639265
window2542

overview

Window 2

Location 5,682,405 – 5,682,521
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.05
Mean single sequence MFE -14.25
Consensus MFE -1.27
Energy contribution -1.02
Covariance contribution -0.25
Combinations/Pair 1.47
Mean z-score -1.49
Structure conservation index 0.09
SVM decision value 0.22
SVM RNA-class probability 0.639265
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5682405 116 - 20766785
CGAUUUUAACCCCGUGCUCCUCUGCACUCAUCCCU---UUAGGAUAUUUCCGCUUUUCAUCUUAUUCU-UAACCUCGAAAUCAAUUAUUCUCAGUUCGUUUAAAUCAUAUUAAUUAUAAA
.(((((.(((...((((......))))........---...(((....))).................-............................))).))))).............. ( -14.00)
>DroSec_CAF1 19395 119 - 1
CGAUUUUAACCCCGUGCUCCUCGACAUUGACCCCUCUUUUGGGAUAUUGCCGCUUUUCAUCUUAUUCU-UAACCUCGAAAUCAAUUAUUCCCAGUUCGUUUAAAUCAUAUUAAUUAUAAA
.(((((.(((..((.......))...............((((((.((((.....((((..........-.......)))).))))...))))))...))).))))).............. ( -12.53)
>DroSim_CAF1 22018 119 - 1
CGAUUUUAACCCCGUGCUCCUCUGCACUGACCCCUCUUUUGGGAUAUUGCCUCUUUUCAUCUUAUUCU-UAACCUCGAAAUCAAUUAUUCCCAGUUCGUUUAAAUCAUAUUAAUUAUAAA
.(((((.(((...((((......))))...........((((((.((((.....((((..........-.......)))).))))...))))))...))).))))).............. ( -18.93)
>DroEre_CAF1 19920 116 - 1
CGAUUUGUGCCCCCUA---CUCUUUACUGCCUUUACCCUUUGGCCGUUUCCGCUUUUCAUCUUAUUCU-UAACCUCGGAAUCAAUUAUUCCCAGUUCGUUUAAAUCAUAUUAAUUAUAAA
.((((((.((......---......((.(((..........))).)).....................-....((.(((((.....))))).))...)).)))))).............. ( -13.40)
>DroAna_CAF1 21585 90 - 1
UCAUUCUGGCCUGGCCCCCCUCGCCA-------------------GCUUCCGG-----------UUCUUCAGCCCCAAAAUCAAUUAUUCUCAGCUCGUUUAAACUAUAUUAAUUAUGAA
((((.(((((..((....))..))))-------------------).....((-----------(......))).........................................)))). ( -12.40)
>consensus
CGAUUUUAACCCCGUGCUCCUCUGCACUGACCCCUC__UUGGGAUAUUUCCGCUUUUCAUCUUAUUCU_UAACCUCGAAAUCAAUUAUUCCCAGUUCGUUUAAAUCAUAUUAAUUAUAAA
.(((((.(((......................(((.....)))...........................(((...(((........)))...))).))).))))).............. ( -1.27 =  -1.02 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:16 2006